Drivers on The Halophytes' Rhizosphere Bacteria Community and Functions in North China Salinized Areas

2021 ◽  
Author(s):  
Fating Yin ◽  
Fenghua Zhang ◽  
Zhibo Cheng ◽  
Haoran Wang
Keyword(s):  
Bacterial Community ◽  
North China ◽  
High Throughput Sequencing ◽  
Environmental Changes ◽  
Rhizosphere Soil ◽  
Ph Value ◽  
Northern China ◽  
Soil Bacterial Community ◽  
Leymus Chinensis ◽  
Soil Bacterial

Abstract Soil salinity is a serious environmental issue in arid China. Soil bacteria play a fundamental role in soil systems and respond rapidly to environmental changes. However, the responses of soil bacterial community to the different halophytes remains poorly understood. We investigated rhizosphere soil bacterial community changes under different halophytes in north China using high-throughput sequencing. Three typical halophytes were Leymus chinensis (LC), Puccinellia tenuiflora (PT), Suaeda glauca (SG). The dominant phyla were Proteobacteria, Actinobacteria, and Chloroflexi across three halophytic vegetation. These bacteria have important assistance for halophytes adapt to saline soil. PICRUSt forecasts demonstrated that energy metabolism, amino acid metabolism and carbohydrate metabolism are main bacterial functions in halophyte vegetation soil, and the abundance of metabolism these bacterial functions in SG was significantly higher than that in LC and PT. The pH value of different halophyte rhizosphere soils has a more significant effect on bacterial diversity than EC and soil trophic status, and soil water content (SWC) was important effect factors leading to differences in bacterial functions. These results give us a deeper understanding of the diversity and functional differences of rhizosphere soil bacterial communities in the typical halophytic vegetation of northern China.

scholarly journals Soil bacterial community and functions directly respond to grazing exclusion in a Leymus chinensis steppe of Inner Mongolia, China

2020 ◽  
Author(s):  
Han-Wen Deng ◽  
Xin-Fu Bai ◽  
Ping Zhu ◽  
Yu-Meng Lu ◽  
Lei Ji ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Inner Mongolia ◽  
Soil Bacterial Community ◽  
Leymus Chinensis ◽  
Absolute Abundance ◽  
Ecological Functions ◽  
Grazing Exclusion ◽  
The Absolute ◽  
Soil Bacterial

Abstract Background Grazing exclusion is a common grassland management strategy for restoring degraded grasslands. Its effectiveness on optimizing plant species community, increasing vegetation diversity and biomass, improving soil fertility, has been widely documented in literatures. However, little is known on the responses of the absolute abundance and the ecological functions of soil bacterial community to long-term grazing exclusion. Result In this study, the absolute abundance, diversity, and ecological functions of soil bacterial community were determined by the high-throughput absolute quantitative sequencing technology on a long-term grazing exclusion (40 years, GE) area and three free grazing areas (FGs) within a Leymus chinensis steppe of Inner Mongolia, China, and analyzed the driving forces leading to the variations in soil bacterial community and functions. Our results showed that there was significantly higher soil bacterial abundance in the GE than the FGs along with corresponding variations in vegetation and soil properties. With the decrease of vegetation aboveground biomass, the absolute abundance of soil bacterial community also decreased. Among the phyla of the soil bacterial communities, the relative abundances of Chloroflexi and Firmicutes phyla were especially lower, and that of Verrucomicrobia phylum was higher in the GE than the FGs; the absolute abundances of Euryarchaeota and Microgenomates phyla were especially higher in the GE than the FGs. Conclusions This study suggested that long-term grazing exclusion significantly increased the absolute abundance, changed soil bacterial composition, and especially enhanced bacterial motility and chemotaxis. In particular, soil organic matter was the important agent to influence and connect vegetation and soil. This work will enrich our understanding of the responses of absolute abundance, diversity, and function of the soil bacterial community to long-term grazing exclusion, and help the evaluation of grassland degradation degree and restoration strategy effectiveness.

scholarly journals Changes in the Composition of the Soil Bacterial Community in Heavy Metal-Contaminated Farmland

2021 ◽  
Vol 18 (16) ◽  
pp. 8661
Author(s):  
Shu-chun Tseng ◽  
Chih-ming Liang ◽  
Taipau Chia ◽  
Shan-shin Ton
Keyword(s):  
Heavy Metal ◽  
Bacterial Community ◽  
Structural Changes ◽  
Ph Value ◽  
Deep Layer ◽  
Soil Bacterial Community ◽  
Rrna Gene ◽  
Zinc Tolerance ◽  
Copper And Zinc ◽  
Soil Bacterial

The structural changes of microorganisms in soil are the focus of soil indicators research. The purpose of this study was to investigate the changes in the composition of the soil bacterial community in heavy metal-contaminated soil. A total of six soil samples (two sampling times) were collected from contaminated farmland at three different depths (surface, middle, and deep layer). The pH value was measured. The concentrations of heavy metals (Cr, Ni, Cu, Zn, Cd, and Pb) and the soil bacterial community were analyzed using ICP-OES and 16S rRNA gene sequencing. The results of the two samplings showed that the pH value in the deep layer decreased from 6.88 to 6.23, and the concentrations of Cu, Zn, Cd, and Pb, with a smaller ion radius, increased by 16–28%, and Shannon, Chao1 increased by ~13%. The bacteria community composition at the three depths changed, but Proteobacteria, Acidobacteria, and Actinobacteria were the dominant phyla. In the copper and zinc tolerance test, the isolated bacterium that was able to tolerate copper and zinc was Bacillus sp. We found that, the longer the heavy metal pollution was of concern, the higher the tolerance. These results can be used as references for the microbial remediation of heavy metal-contaminated farmland.

scholarly journals Difference in Rhizosphere Soil Bacterial Community was among Six Cinnamomum camphora Chemotypes

2021 ◽  
Author(s):  
Zufei Xiao ◽  
Beihong Zhang ◽  
Yangbao Wang ◽  
Zhinong Jin ◽  
Feng Li ◽  
...  
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Rhizosphere Soil ◽  
Soil Nutrient ◽  
Soil Bacterial Community ◽  
Cinnamomum Camphora ◽  
Close Relationship ◽  
Soil Bacterial

Abstract: Plant types and soil bacterial communities had a close relationship, understanding the profound association between them contributes to better learn bacterial ecological function for plant growth. In this study, rhizosphere soil of six different chemotype Cinnamomum camphora trees were collected, including C. bodinieri var. citralifera, [C. camphora (Linn.) Presl], camphora-type, cineole-type, linalool-type and isoborneol-type. Soil properties content and bacterial communities were analyzed. Two chemotype C. camphora, including [C. camphora (Linn.) Presl] and linalool-type, shaped similar bacterial community structure, decreased Firmcutes relative abundance. richness estimators (Chao1 index and Ace index) of [C. camphora (Linn.) Presl] were decreased compared with the others. Furthermore, soil bacterial community structure was also similar among bodinieri var. citralifera, camphora-type, cineole-type and isoborneol-type. Hence, different chemotype C. camphora altered soil nutrient and shaped rhizosphere bacterial communities.

scholarly journals High throughput sequencing-based analysis of the soil bacterial community structure and functions of Tamarix shrubs in the lower reaches of the Tarim River

PeerJ ◽  
2021 ◽  
Vol 9 ◽  
pp. e12105
Author(s):  
Fangnan Xiao ◽  
Yuanyuan Li ◽  
Guifang Li ◽  
Yaling He ◽  
Xinhua Lv ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Bacterial Communities ◽  
Metabolic Pathways ◽  
Soil Bacteria ◽  
High Throughput Sequencing ◽  
Soil Bacterial Community ◽  
Tarim River ◽  
Soil Bacterial Communities ◽  
Soil Bacterial ◽  
And Function

Tamarix is a dominant species in the Tarim River Basin, the longest inland river in China. Tamarix plays an important role in the ecological restoration of this region. In this study, to investigate the soil bacterial community diversity in Tamarix shrubs, we collected soil samples from the inside and edge of the canopy and the edge of nebkhas and non-nebkhas Tamarix shrubs located near the Yingsu section in the lower reaches of Tarim River. High throughput sequencing technology was employed to discern the composition and function of soil bacterial communities in nebkhas and non-nebkhas Tamarix shrubs. Besides, the physicochemical properties of soil and the spatial distribution characteristics of soil bacteria and their correlation were analyzed. The outcomes of this analysis demonstrated that different parts of Tamarix shrubs had significantly different effects on soil pH, total K (TK), available K (AK), ammonium N (NH4+), and available P (AP) values (P < 0.05), but not on soil moisture (SWC), total salt (TDS), electrical conductivity (EC), organic matter (OM), total N (TN), total P (TP), and nitrate N (NO3−) values. The soil bacterial communities identified in Tamarix shrubs were categorized into two kingdoms, 71 phyla, 161 classes, 345 orders, 473 families, and 702 genera. Halobacterota, unidentified bacteria, and Proteobacteria were found to be dominant phyla. The correlation between the soil physicochemical factors and soil bacterial community was analyzed, and as per the outcomes OM, AK, AP, EC, and NH4+ were found to primarily affect the structure of the soil bacterial community. SWC, TK and pH were positively correlated with each other, but negatively correlated with other soil factors. At the phyla level, a significantly positive correlation was observed between the Halobacterota and AP, OM as well as Bacteroidota and AK (P < 0.01), but a significantly negative correlation was observed between the Chloroflexi and AK, EC (P < 0.01). The PICRUSt software was employed to predict the functional genes. A total of 6,195 KEGG ortholog genes were obtained. The function of soil bacteria was annotated, and six metabolic pathways in level 1, 41 metabolic pathways in level 2, and 307 metabolic pathways in level 3 were enriched, among which the functional gene related to metabolism, genetic information processing, and environmental information processing was found to have the dominant advantage. The results showed that the nebkhas and canopy of Tamarix shrubs had a certain enrichment effect on soil nutrients content, and bacterial abundance and significant effects on the structure and function of the soil bacterial community.

scholarly journals Conservation tillage regulates soil bacterial community assemblies, network structures and ecological functions in black soils

2021 ◽  
Author(s):  
Zhuxiu Liu ◽  
Haidong Gu ◽  
Aizhen Liang ◽  
Lujun Li ◽  
Qin Yao ◽  
...  
Keyword(s):  
Bacterial Community ◽  
Soil Carbon ◽  
High Throughput Sequencing ◽  
Conservation Tillage ◽  
Conventional Tillage ◽  
Soil Bacterial Community ◽  
Community Structures ◽  
Tillage Practices ◽  
Degrading Bacteria ◽  
Soil Bacterial

Abstract Aims Conventional tillage is a serious threat to the stability of soil ecosystems. Understanding the response mechanisms of soil microbial community assemblies to anthropogenic activities is a major topic of ecological research. Methods Here, we investigated the bacterial community structures and assemblies in bulk and rhizosphere soils of soybeans grown with conventional tillage (moldboard plow, MP) and with conservation tillage that involved no-tillage (NT) or ridge tillage (RT) using high-throughput sequencing methods. Results We found that soil bacterial community compositions, structures and assembly processes were primarily altered by tillage practices. Briefly, in comparison to MP, NT and RT increased the relative abundances of the nitrogen-fixing bacteria Mesorhizobium sp., Bradyrhizobium sp. and Burkholderia sp., but decreased the abundance of soil carbon-degrading bacteria, especially Blastococcus sp., Streptomyces sp. and Sphingomonas sp. In addition, in comparison to MP, NT and RT resulted in more stable bacterial networks and more lower the relative contribution of homogenizing dispersal. Soil pH was the primary soil factor regulating both the bacterial community structures and assembly processes under the three tillage practices. Conclusions The altered functional bacteria under conservation tillage was mostly affiliated with biomarkers and keystone taxa, inferring that conservation tillage might contribute to biological nitrogen fixation and soil carbon sequestration.

scholarly journals Assessing soil bacterial community and dynamics by integrated high-throughput absolute abundance quantification

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4514 ◽  
Author(s):  
Jun Lou ◽  
Li Yang ◽  
Haizhen Wang ◽  
Laosheng Wu ◽  
Jianming Xu
Keyword(s):  
Bacterial Community ◽  
High Throughput ◽  
Relative Abundance ◽  
High Throughput Sequencing ◽  
Laboratory Strain ◽  
Soil Bacterial Community ◽  
Absolute Abundance ◽  
Internal Reference ◽  
Biodegradation Study ◽  
Soil Bacterial

Microbial ecological studies have been remarkably promoted by the high-throughput sequencing approach with explosive information of taxonomy and relative abundance. However, relative abundance does not reflect the quantity of the microbial community and the inter-sample differences among taxa. In this study, we refined and applied an integrated high-throughput absolute abundance quantification (iHAAQ) method to better characterize soil quantitative bacterial community through combining the relative abundance (by high-throughput sequencing) and total bacterial quantities (by quantitative PCR). The proposed iHAAQ method was validated by an internal reference strain EDL933 and a laboratory strain WG5. Application of the iHAAQ method to a soil phenanthrene biodegradation study showed that for some bacterial taxa, the changes of relative and absolute abundances were coincident, while for others the changes were opposite. With the addition of a microbial activity inhibitor (NaN3), the absolute abundances of soil bacterial taxa, including several dominant genera of Bacillus, Flavobacterium, and Paenibacillus, decreased significantly, but their relative abundances increased after 28 days of incubation. We conclude that the iHAAQ method can offer more comprehensive information to reflect the dynamics of soil bacterial community with both relative and absolute abundances than the relative abundance from high-throughput sequencing alone.

scholarly journals Manure Application Affects Soil Bacterial Community Structure in the Maize-wheat Rotation System of North China Plain

2021 ◽  
Author(s):  
Gaoyuan Liu ◽  
Ailing He ◽  
Jun Du ◽  
Huanhuan Yang ◽  
Zhanping Yang ◽  
...  
Keyword(s):  
Bacterial Community ◽  
North China Plain ◽  
North China ◽  
Application Rate ◽  
Soil Bacterial Community ◽  
Organic N ◽  
N Application ◽  
Manure Application ◽  
N Application Rate ◽  
Soil Bacterial

Abstract A 2-year maize-wheat rotation experiment was conducted to clarify the characteristics of soil bacterial community under reduced fertiliser-N application rate on the North China Plain. Treatments were conventional fertilisation (CF), 80% fertiliser-N input (80%N) and 80% fertiliser-N plus manure input (80%NM) in the wheat season, while the fertilisation regimes of previous maize were consistent. Results showed that 80%NM increased wheat ear·m-2 and 1,000-grain weight by 5.1% and 7.5%, and it also increased soil C/N ratio (by 29.1%) and dissolved organic N content (by 41.6%), compared with CF, although the difference in crop yields between treatments was not significant. Values of soil bacterial α-diversity parameters (observed species, chao1 estimator, evenness and Shannon’s diversity index) were improved under 80%NM, but not under 80%N. Compared with CF, 80%NM increased the abundance of phyla Firmicutes and Gemmatimonadetes but decreased the abundance of phylum Acidobacteria. Redundancy analysis indicated that organic C, dissolved organic N and C/N ratio were major environment variables affecting the distribution of bacterial phyla. These results suggest that manure application can improve soil fertility and productivity under reduced fertiliser-N application rate.

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